Locus 5076

Sequence ID 3L_DroMel_CAF1
Location 13,928,913 – 13,929,029
Length 116
Max. P 0.795789
window8043 window8044

overview

Window 3

Location 13,928,913 – 13,929,029
Length 116
Sequences 6
Columns 117
Reading direction forward
Mean pairwise identity 81.49
Mean single sequence MFE -41.42
Consensus MFE -32.74
Energy contribution -34.33
Covariance contribution 1.59
Combinations/Pair 1.19
Mean z-score -1.25
Structure conservation index 0.79
SVM decision value 0.08
SVM RNA-class probability 0.572066
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 13928913 116 + 23771897
AUGGGUCGUUAGCUGGGCAUUGGUACGAAAUCCCCGACCGCAGAAAUCGCAGAGGUGCGGCUUUUGUGUAUCACCUUGCUCCUUGUGCUUGGCAACGUGCCUUGCCAACGCCUUUU-
..(((.((((.((.((((((.(((.((.......)))))(((.((...(((.(((((..((......))..))))))))...)).)))..(....))))))).)).)))))))...- ( -38.60)
>DroSec_CAF1 37164 116 + 1
AUGGGUCGUUAGCUGGGCGUUGGUACGAAAUCCUCGUCCGCAGAAGUCGCAGAGGUGCGGCUUUUGUGUAUCACCUUGCUCCUUGUGCUUGGCAACGUGCCUUGCCAACGCCUUCU-
..(((.((((.((.((((((((..((((.....)))).(((((((((((((....))))))))))))).....((..((.......))..))))))..)))).)).)))))))...- ( -43.30)
>DroSim_CAF1 37519 116 + 1
AUGGGUCGUUAGCUGGGCGUUGGUACGAAAUCCGCGUCCGCAGAAGUCGCAGAGGUGCGGCUUUUGUGUAUCACCUUGCUCCUUGUGCUUGGCAACGUGCCUUGCCAACGCCUUCU-
..............(((((((((((.(.....(((((.(((((((((((((....))))))))))))).....((..((.......))..))..))))).).)))))))))))...- ( -44.10)
>DroEre_CAF1 36471 116 + 1
GUGGGUCGUUAGCUGGGCGUUGGUACGAAAUCCCCGUCCGCAGAAGUCGCAGAGGUGCGUCUUUUGUGUAUCACCUUGCUUCCUAUGCUUGGCAACGUGCCUUGCCAACGCCUUUU-
..............(((((((((((.(...........((((((((.((((....)))).))))))))...(((.(((((..........))))).))).).)))))))))))...- ( -40.20)
>DroYak_CAF1 38667 116 + 1
AUGGGUCGUUAGCUGGGCGUUGGUACGGAAUCCCCGACCGCAGAAGUCGCAUAGGUGCGGCUUUUGUGUAUCACCUUGCUCCUUAUGCUUAGCAACGUGCCUUGCCAACGCCUUUU-
..............(((((((((((.((..........(((((((((((((....)))))))))))))...(((.(((((..........))))).))))).)))))))))))...- ( -46.30)
>DroPer_CAF1 38209 111 + 1
GUGUAUUAUUAAUUGGGCGCUGCUUCUGUAGCCCUUGCCGCAGGUCUCGCAAAGAUGGGA------UCGCUCAAACUGUUUCUUGUGUGCGGCCAUGUGCUGGGCCAGCGUGUACUU
..............(((.(((((....))))))))((((((.(((((.(((...((((..------((((....((........))..)))))))).))).))))).))).)))... ( -36.00)
>consensus
AUGGGUCGUUAGCUGGGCGUUGGUACGAAAUCCCCGUCCGCAGAAGUCGCAGAGGUGCGGCUUUUGUGUAUCACCUUGCUCCUUGUGCUUGGCAACGUGCCUUGCCAACGCCUUCU_
..............(((((((((((.............(((((((((((((....)))))))))))))...(((.(((((..........))))).)))...))))))))))).... (-32.74 = -34.33 +   1.59)

alignment

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secondary structure

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dotplot

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Window 4

Location 13,928,913 – 13,929,029
Length 116
Sequences 6
Columns 117
Reading direction reverse
Mean pairwise identity 81.49
Mean single sequence MFE -38.62
Consensus MFE -27.42
Energy contribution -28.37
Covariance contribution 0.95
Combinations/Pair 1.24
Mean z-score -1.92
Structure conservation index 0.71
SVM decision value 0.60
SVM RNA-class probability 0.795789
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 13928913 116 - 23771897
-AAAAGGCGUUGGCAAGGCACGUUGCCAAGCACAAGGAGCAAGGUGAUACACAAAAGCCGCACCUCUGCGAUUUCUGCGGUCGGGGAUUUCGUACCAAUGCCCAGCUAACGACCCAU
-....(((((((((..(((.....)))........((.((((((((...(......)...))))).(((((..(((.(....).)))..)))))....))))).))))))).))... ( -38.70)
>DroSec_CAF1 37164 116 - 1
-AGAAGGCGUUGGCAAGGCACGUUGCCAAGCACAAGGAGCAAGGUGAUACACAAAAGCCGCACCUCUGCGACUUCUGCGGACGAGGAUUUCGUACCAACGCCCAGCUAACGACCCAU
-....(((((((((..(((..........(((.(((..((((((((...(......)...))))).)))..))).)))(((((((...))))).))...)))..))))))).))... ( -42.00)
>DroSim_CAF1 37519 116 - 1
-AGAAGGCGUUGGCAAGGCACGUUGCCAAGCACAAGGAGCAAGGUGAUACACAAAAGCCGCACCUCUGCGACUUCUGCGGACGCGGAUUUCGUACCAACGCCCAGCUAACGACCCAU
-....(((((((((..(((.....)))........((.((.(((((...(......)...))))).(((((..(((((....)))))..))))).....)))).))))))).))... ( -41.00)
>DroEre_CAF1 36471 116 - 1
-AAAAGGCGUUGGCAAGGCACGUUGCCAAGCAUAGGAAGCAAGGUGAUACACAAAAGACGCACCUCUGCGACUUCUGCGGACGGGGAUUUCGUACCAACGCCCAGCUAACGACCCAC
-....(((((((((..(((..........(((.(((..((((((((...(......)...))))).)))..))).)))((((((.....)))).))...)))..))))))).))... ( -39.30)
>DroYak_CAF1 38667 116 - 1
-AAAAGGCGUUGGCAAGGCACGUUGCUAAGCAUAAGGAGCAAGGUGAUACACAAAAGCCGCACCUAUGCGACUUCUGCGGUCGGGGAUUCCGUACCAACGCCCAGCUAACGACCCAU
-....(((((((((..(((..........(((.(((..((((((((...(......)...))))).)))..))).)))((((((.....))).)))...)))..))))))).))... ( -44.10)
>DroPer_CAF1 38209 111 - 1
AAGUACACGCUGGCCCAGCACAUGGCCGCACACAAGAAACAGUUUGAGCGA------UCCCAUCUUUGCGAGACCUGCGGCAAGGGCUACAGAAGCAGCGCCCAAUUAAUAAUACAC
.......(((((((((..(....)((((((..((((......)))).((((------........))))......))))))..))))........)))))................. ( -26.60)
>consensus
_AAAAGGCGUUGGCAAGGCACGUUGCCAAGCACAAGGAGCAAGGUGAUACACAAAAGCCGCACCUCUGCGACUUCUGCGGACGGGGAUUUCGUACCAACGCCCAGCUAACGACCCAU
.....((((((((...(((.....)))..(((.(((..((((((((..............))))).)))..))).)))................))))))))............... (-27.42 = -28.37 +   0.95)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:41:23 2006